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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ), 'gf_id' => 'HOM05D001090', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001090' ), 'data_identifier' => 'HOM05D001090', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001090', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p31480' => 'bna', 'A06p17720' => 'bna', 'A08p28880' => 'bna', 'A09p01300' => 'bna', 'Aa31LG5G1560' => 'aar', 'Aa31LG7G5620' => 'aar', 'Aa31LG7G5630' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1595' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.4155' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.1596' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1353' => 'aag', 'Actinidia03422' => 'ach', 'Actinidia06406' => 'ach', 'Actinidia06407' => 'ach', 'Actinidia15217' => 'ach', 'Actinidia21282' => 'ach', 'Actinidia21339' => 'ach', 'Actinidia25217' => 'ach', 'Actinidia25871' => 'ach', 'Actinidia29485' => 'ach', 'Ah.02g112710' => 'amhyb', 'Ah.02g123870' => 'amhyb', 'Ah.15g091800' => 'amhyb', 'Ah.15g092020' => 'amhyb', 'AL1G34790' => 'aly', 'AL1G34800' => 'aly', 'AL6G51490' => 'aly', 'AL6G51500' => 'aly', 'Aqoxy2G02491' => 'aox', 'Aqoxy5G02821' => 'aox', 'Aqoxy6G00322' => 'aox', 'Aqoxy6G00325' => 'aox', 'arahy.Tifrunner.gnm1.ann1.8ABR7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9KCZ17' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9Y6HC5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ABV5WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C8B505' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CM9LJ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW9EKZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D3Z63J' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FIZF7Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G6GS0I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFGS9U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ID57CI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KI1FZN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NR7S6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ6HP5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U2IN5X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V5YSST' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKWK3F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W4NCT5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X0B7GA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XGP1KG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YTY742' => 'arhy', 'AT1G21650' => 'ath', 'AT1G21651' => 'ath', 'AT4G01800' => 'ath', 'AT4G01810' => 'ath', 'ATR0584G005' => 'atr', 'ATR0584G059' => 'atr', 'ATR0598G284' => 'atr', 'ATR0796G193' => 'atr', 'Atru.chr13.1551' => 'acertr', 'Atru.chr13.1553' => 'acertr', 'Atru.chr5.862' => 'acertr', 'Atru.chr5.863' => 'acertr', 'AUR62007722' => 'cqu', 'AUR62013420' => 'cqu', 'AUR62038567' => 'cqu', 'AUR62040321' => 'cqu', 'AUR62040524' => 'cqu', 'AUR62042009' => 'cqu', 'AUR62042130' => 'cqu', 'AUR62042131' => 'cqu', 'BcaB01g02111' => 'bca', 'BcaB01g02379' => 'bca', 'BcaB07g32158' => 'bca', 'BcaC01g06802' => 'bca', 'BcaC04g24072' => 'bca', 'BcaC05g26082' => 'bca', 'BolC3t16120H' => 'bol', 'BolC5t30760H' => 'bol', 'BolC8t49734H' => 'bol', 'BolC9t53069H' => 'bol', 'BraA03t12328Z' => 'bra', 'BraA06t24864Z' => 'bra', 'BraA08t34819Z' => 'bra', 'BraA09t35795Z' => 'bra', 'C03p38470' => 'bna', 'C05p20620' => 'bna', 'C08p20970' => 'bna', 'C09p01350' => 'bna', 'CAN.G100.57' => 'can', 'CAN.G100.58' => 'can', 'CAN.G100.59' => 'can', 'CAN.G342.10' => 'can', 'CAN.G342.11' => 'can', 'CAN.G342.12' => 'can', 'CAN.G342.13' => 'can', 'CANSAT21G2061' => 'cansat', 'CANSAT25G3150' => 'cansat', 'CANSAT25G3239' => 'cansat', 'CANSAT56G3793' => 'cansat', 'CARHR022000' => 'chi', 'CARHR249770' => 'chi', 'CARHR249790' => 'chi', 'Carub.0001s2107' => 'cru', 'Carub.0001s2108' => 'cru', 'Carub.0006s3541' => 'cru', 'Carub.0006s3542' => 'cru', 'Ca_09245_v3' => 'car', 'Ca_10240_v3' => 'car', 'Ca_16603_v3' => 'car', 'Ca_16604_v3' => 'car', 'CBR_g2809' => 'cbr', 'CBR_g50342' => 'cbr', 'CBR_g8279' => 'cbr', 'CBR_g939' => 'cbr', 'Cc01_g21780' => 'ccan', 'Cc01_g21790' => 'ccan', 'Cc08_g04430' => 'ccan', 'Cc10_g12630' => 'ccan', 'Cc10_g12660' => 'ccan', 'Cc10_g12670' => 'ccan', 'Cc10_g12680' => 'ccan', 'CDE02G2378' => 'cde', 'CDE02G4194' => 'cde', 'CDE06G1382' => 'cde', 'CDE08G0358' => 'cde', 'CDE08G0798' => 'cde', 'CDE08G1158' => 'cde', 'CDE08G1173' => 'cde', 'Cfa004911' => 'cfa', 'Cfa004913' => 'cfa', 'Cfa018121' => 'cfa', 'Cfa018122' => 'cfa', 'Ciclev10000116m.g' => 'ccl', 'Ciclev10000294m.g' => 'ccl', 'Ciclev10018714m.g' => 'ccl', 'Ciclev10018812m.g' => 'ccl', 'CiPaw.08G082600' => 'cil', 'CiPaw.08G082800' => 'cil', 'CiPaw.15G032300' => 'cil', 'CiPaw.15G032400' => 'cil', 'ClCG07G007660' => 'cla', 'ClCG07G007680' => 'cla', 'ClCG11G013160' => 'cla', 'ClCG11G013170' => 'cla', 'COL.COLO4_05689' => 'col', 'COL.COLO4_09042' => 'col', 'COL.COLO4_23129' => 'col', 'COL.COLO4_23131' => 'col', 'Cpa.g.sc57.13' => 'cpa', 'Cpa.g.sc57.15' => 'cpa', 'Cpa.g.sc64.146' => 'cpa', 'Cpa.g.sc64.147' => 'cpa', 'Cre10.g447350' => 'cre', 'Cre11.g467711' => 'cre', 'Cre12.g517900' => 'cre', 'Cre12.g518000' => 'cre', 'CsaV3_1G032930' => 'csa', 'CsaV3_4G006230' => 'csa', 'CsaV3_5G029690' => 'csa', 'CSS0001559' => 'camsi', 'CSS0004473' => 'camsi', 'CSS0005695' => 'camsi', 'CSS0008667' => 'camsi', 'CSS0011193' => 'camsi', 'CSS0019679' => 'camsi', 'CSS0020175' => 'camsi', 'CSS0021561' => 'camsi', 'CSS0022044' => 'camsi', 'CSS0030841' => 'camsi', 'CSS0043152' => 'camsi', 'DCAR_002936' => 'dca', 'DCAR_002937' => 'dca', 'DCAR_005716' => 'dca', 'DCAR_005717' => 'dca', 'DCAR_018875' => 'dca', 'DCAR_022875' => 'dca', 'Dinv12082' => 'din', 'Dinv14668' => 'din', 'Dinv14669' => 'din', 'Dinv33168' => 'din', 'Dinv33172' => 'din', 'Dinv40409' => 'din', 'Dinv40410' => 'din', 'Dinv44413' => 'din', 'Duzib041G0130' => 'dzi', 'Duzib093G1991' => 'dzi', 'Duzib133G1021' => 'dzi', 'Duzib138G0040' => 'dzi', 'Duzib138G0905' => 'dzi', 'ECA232G2805' => 'eca', 'ECA233G3948' => 'eca', 'ECA238G2411' => 'eca', 'ECA247G3754' => 'eca', 'EL10Ac1g01340' => 'bvu', 'EL10Ac3g06526' => 'bvu', 'EL10Ac7g17290' => 'bvu', 'EL10Ac7g17319' => 'bvu', 'EL10As5g23621' => 'bvu', 'Eucgr.A01004' => 'egr', 'Eucgr.F03832' => 'egr', 'Eucgr.F03833' => 'egr', 'Eucgr.K00564' => 'egr', 'FAN15G0022' => 'fan', 'FAN19G2974' => 'fan', 'FAN19G3148' => 'fan', 'FAN20G0562' => 'fan', 'FAN23G2191' => 'fan', 'FAN23G2339' => 'fan', 'FAN24G1236' => 'fan', 'FAN26G0681' => 'fan', 'FAN26G0951' => 'fan', 'FAN27G1391' => 'fan', 'FAN28G1233' => 'fan', 'FAN28G2823' => 'fan', 'FvH4_1g26240' => 'fve', 'FvH4_1g26250' => 'fve', 'FvH4_2g22640' => 'fve', 'FvH4_2g27740' => 'fve', 'FvH4_2g27750' => 'fve', 'Glyma.02G007700' => 'gma', 'Glyma.03G224400' => 'gma', 'Glyma.04G053600' => 'gma', 'Glyma.06G116800' => 'gma', 'Glyma.06G116900' => 'gma', 'Glyma.09G123400' => 'gma', 'Glyma.10G137800' => 'gma', 'Glyma.10G228500' => 'gma', 'Glyma.12G094300' => 'gma', 'Glyma.19G221300' => 'gma', 'Gohir.A02G071600' => 'ghi', 'Gohir.A02G110100' => 'ghi', 'Gohir.A11G104600' => 'ghi', 'Gohir.A12G119866' => 'ghi', 'Gohir.A12G119932' => 'ghi', 'Gohir.A12G120100' => 'ghi', 'Gohir.D02G078900' => 'ghi', 'Gohir.D03G069000' => 'ghi', 'Gohir.D11G109400' => 'ghi', 'Gohir.D12G123500' => 'ghi', 'Gohir.D12G123700' => 'ghi', 'Gorai.005G088100' => 'gra', 'Gorai.007G117000' => 'gra', 'Gorai.008G134600' => 'gra', 'Gorai.008G134800' => 'gra', 'Gorai.013G107400' => 'gra', 'GSVIVG01008813001' => 'vvi', 'GSVIVG01008814001' => 'vvi', 'GSVIVG01022679001' => 'vvi', 'GSVIVG01028249001' => 'vvi', 'GSVIVG01028251001' => 'vvi', 'HanXRQChr02g0041931' => 'han', 'HanXRQChr09g0260691' => 'han', 'HanXRQChr10g0286461' => 'han', 'HanXRQChr11g0352011' => 'han', 'HanXRQChr17g0555271' => 'han', 'Haze_05146' => 'cav', 'Haze_05148' => 'cav', 'Haze_26618' => 'cav', 'Hma1.2p1_0014F.1_g010110' => 'hma', 'Hma1.2p1_0014F.1_g010120' => 'hma', 'Hma1.2p1_0014F.1_g010140' => 'hma', 'Hma1.2p1_0484F.1_g162970' => 'hma', 'Hma1.2p1_1075F.1_g254480' => 'hma', 'Hma1.2p1_1129F.1_g259860' => 'hma', 'HPP92_007345' => 'vpl', 'HPP92_007346' => 'vpl', 'HPP92_013748' => 'vpl', 'HPP92_015635' => 'vpl', 'HPP92_018286' => 'vpl', 'Hund11623' => 'sun', 'Hund11624' => 'sun', 'Hund17320' => 'sun', 'Hund17700' => 'sun', 'Hund26778' => 'sun', 'Lalb_Chr02g0147141' => 'lal', 'Lalb_Chr02g0147151' => 'lal', 'Lalb_Chr04g0260211' => 'lal', 'Lalb_Chr08g0241141' => 'lal', 'Lalb_Chr08g0241151' => 'lal', 'Lalb_Chr18g0046391' => 'lal', 'Lj1A8G46' => 'lonja', 'Lj1A8G48' => 'lonja', 'Lj1A8T46' => 'lonja', 'Lj1C8G4' => 'lonja', 'Lj1g0001372' => 'lja', 'Lj1g0016545' => 'lja', 'Lj1g0021730' => 'lja', 'Lj5g0004951' => 'lja', 'Lj7A347G44' => 'lonja', 'Lj7A347G45' => 'lonja', 'Lj7A347T47' => 'lonja', 'Lj7C347T10' => 'lonja', 'Lj7C349G17' => 'lonja', 'Lsat_1_v5_gn_1_14741' => 'lsa', 'Lsat_1_v5_gn_1_9840' => 'lsa', 'Lsat_1_v5_gn_2_1481' => 'lsa', 'Lsat_1_v5_gn_2_25180' => 'lsa', 'Lsat_1_v5_gn_2_6401' => 'lsa', 'Lsat_1_v5_gn_3_23020' => 'lsa', 'Lsat_1_v5_gn_3_68420' => 'lsa', 'Lsat_1_v5_gn_3_94600' => 'lsa', 'Lsat_1_v5_gn_4_134081' => 'lsa', 'Lsat_1_v5_gn_4_82341' => 'lsa', 'Lsat_1_v5_gn_6_82620' => 'lsa', 'Lsat_1_v5_gn_7_82981' => 'lsa', 'Lsat_1_v5_gn_8_125581' => 'lsa', 'Lsat_1_v5_gn_9_22861' => 'lsa', 'Lsat_1_v5_gn_9_6960' => 'lsa', 'Manes.01G235000' => 'mes', 'Manes.02G167501' => 'mes', 'Manes.02G167701' => 'mes', 'Manes.05G009000' => 'mes', 'Manes.05G009100' => 'mes', 'Manes.18G082000' => 'mes', 'Mapoly0020s0076' => 'mpo', 'Mapoly0048s0095' => 'mpo', 'Mapoly0073s0063' => 'mpo', 'Mapoly0084s0040' => 'mpo', 'MBI03_g28477_MAGBIO' => 'mbi', 'MBI03_g28478_MAGBIO' => 'mbi', 'MBI19_g30286_MAGBIO' => 'mbi', 'MBI19_g30287_MAGBIO' => 'mbi', 'MCO03G029' => 'mco', 'MCO10G223' => 'mco', 'MCO14G401' => 'mco', 'MD00G1100600' => 'mdo', 'MD08G1158400' => 'mdo', 'MD08G1158500' => 'mdo', 'MD09G1290300' => 'mdo', 'MD17G1284900' => 'mdo', 'MD17G1285000' => 'mdo', 'Medtr1g086050' => 'mtr', 'Medtr3g088535' => 'mtr', 'Medtr3g088545' => 'mtr', 'Medtr3g088555' => 'mtr', 'Medtr7g110640' => 'mtr', 'MELO3C002690.2' => 'cme', 'MELO3C011812.2' => 'cme', 'MELO3C011813.2' => 'cme', 'MELO3C016326.2' => 'cme', 'MELO3C016327.2' => 'cme', 'Migut.C01061' => 'egut', 'Migut.C01364' => 'egut', 'Migut.D00012' => 'egut', 'Migut.N00921' => 'egut', 'Migut.N03263' => 'egut', 'Migut.O00617' => 'egut', 'MSTRG.15096' => 'ama', 'MSTRG.24175' => 'ama', 'MSTRG.25363' => 'ama', 'Nitab4.5_0000172g1520' => 'nta', 'Nitab4.5_0000215g0050' => 'nta', 'Nitab4.5_0000222g0360' => 'nta', 'Nitab4.5_0000222g0370' => 'nta', 'Nitab4.5_0000236g0020' => 'nta', 'Nitab4.5_0000886g0200' => 'nta', 'Nitab4.5_0001152g0730' => 'nta', 'Nitab4.5_0001168g0020' => 'nta', 'Nitab4.5_0001168g0030' => 'nta', 'Nitab4.5_0001655g0280' => 'nta', 'Nitab4.5_0001761g0290' => 'nta', 'Nitab4.5_0001763g0080' => 'nta', 'Nitab4.5_0001796g0360' => 'nta', 'Nitab4.5_0002045g0020' => 'nta', 'Nitab4.5_0002045g0110' => 'nta', 'Nitab4.5_0002558g0160' => 'nta', 'Nitab4.5_0003092g0010' => 'nta', 'Nitab4.5_0003092g0020' => 'nta', 'Nitab4.5_0004367g0060' => 'nta', 'Nitab4.5_0005831g0030' => 'nta', 'Nitab4.5_0008430g0030' => 'nta', 'Nitab4.5_0010445g0020' => 'nta', 'Nitab4.5_0010487g0020' => 'nta', 'Nn1g08972' => 'nnu', 'Nn1g08979' => 'nnu', 'Nn3g21945' => 'nnu', 'Nn4g25345' => 'nnu', 'Nn4g25350' => 'nnu', 'Oeu007522.3' => 'oeu', 'Oeu021884.2' => 'oeu', 'Oeu031545.1' => 'oeu', 'Oeu038075.1' => 'oeu', 'Oeu038076.1' => 'oeu', 'Oeu047220.1' => 'oeu', 'Oeu047437.1' => 'oeu', 'Oeu051970.1' => 'oeu', 'Os01g0321300' => 'osa', 'Os01g0321700' => 'osa', 'Os05g0422300' => 'osa', 'Os11g0195100' => 'osa', 'Peaxi162Scf00197g00004' => 'pax', 'Peaxi162Scf00309g00913' => 'pax', 'Peaxi162Scf00309g00916' => 'pax', 'Peaxi162Scf01003g00003' => 'pax', 'Peaxi162Scf01003g00015' => 'pax', 'Peaxi162Scf02154g00004' => 'pax', 'Peaxi162Scf02266g00001' => 'pax', 'Peaxi162Scf02266g00005' => 'pax', 'PGR042G2877' => 'pgr', 'PGR042G2980' => 'pgr', 'PGR142G4102' => 'pgr', 'PGSC0003DMG400001123' => 'stu', 'PGSC0003DMG400006051' => 'stu', 'PGSC0003DMG401006052' => 'stu', 'Phvul.001G218200' => 'pvu', 'Phvul.007G209266' => 'pvu', 'Phvul.007G209332' => 'pvu', 'Phvul.008G171750' => 'pvu', 'Phvul.009G129300' => 'pvu', 'Phvul.009G129400' => 'pvu', 'Potri.002G078000' => 'ptr', 'Potri.002G187100' => 'ptr', 'Potri.014G112266' => 'ptr', 'Potri.014G112600' => 'ptr', 'Potri.019G066500' => 'ptr', 'Pp3c14_11620' => 'ppa', 'Pp3c14_3010' => 'ppa', 'Pp3c20_6050' => 'ppa', 'Pp3c24_9090' => 'ppa', 'Pp3c27_7170' => 'ppa', 'Pp3c8_12300' => 'ppa', 'PRCOL_00000237' => 'pco', 'PRCOL_00002210' => 'pco', 'PRCOL_00005016' => 'pco', 'Prupe.1G490400' => 'ppe', 'Prupe.1G490500' => 'ppe', 'Prupe.3G002700' => 'ppe', 'Prupe.3G002800' => 'ppe', 'Psat3g016720' => 'psa', 'Psat5g085000' => 'psa', 'Psat5g085040' => 'psa', 'Psat6g158920' => 'psa', 'PSO017G6856' => 'pso', 'PSO170G6226' => 'pso', 'PSO210G4393' => 'pso', 'PSO210G7365' => 'pso', 'PSO761G0494' => 'pso', 'PSO761G0525' => 'pso', 'PSO764G0256' => 'pso', 'PSO832G0312' => 'pso', 'QL09p032695' => 'qlo', 'QL09p032725' => 'qlo', 'QL12p034939' => 'qlo', 'QL12p034948' => 'qlo', 'RcHm_v2.0_Chr2g0125491' => 'rch', 'RcHm_v2.0_Chr2g0125501' => 'rch', 'RcHm_v2.0_Chr3g0485781' => 'rch', 'RcHm_v2.0_Chr3g0485911' => 'rch', 'RcHm_v2.0_Chr6g0296591' => 'rch', 'RcHm_v2.0_Chr6g0296621' => 'rch', 'Rhsim01G0000300' => 'rsi', 'Rhsim01G0000500' => 'rsi', 'Rhsim06G0091300' => 'rsi', 'Rhsim11G0070600' => 'rsi', 'Sabra02G0061200' => 'sbr', 'Sabra02G0129700' => 'sbr', 'Sabra14G0082600' => 'sbr', 'Sabra14G0082800' => 'sbr', 'Sabra19G0078400' => 'sbr', 'SalBow2G0524' => 'sbo', 'SalBow7G3344' => 'sbo', 'SalBow7G3826' => 'sbo', 'Sc10g0008070' => 'sci', 'Sc15g0007530' => 'sci', 'Sc17g0000010' => 'sci', 'Sc17g0000020' => 'sci', 'Sc17g0000030' => 'sci', 'Sc17g0000040' => 'sci', 'Sed0003425' => 'sed', 'Sed0004783' => 'sed', 'Sed0008475' => 'sed', 'Sed0013290' => 'sed', 'SEGI_00376' => 'sgi', 'SEGI_03357' => 'sgi', 'SEGI_04791' => 'sgi', 'SEGI_04839' => 'sgi', 'SEGI_20450' => 'sgi', 'SEGI_29052' => 'sgi', 'SEGI_30951' => 'sgi', 'SEGI_33865' => 'sgi', 'SEGI_34208' => 'sgi', 'SEGI_39736' => 'sgi', 'SGA_v2.0_scaffold198G41106' => 'sas', 'SGA_v2.0_scaffold24G10429' => 'sas', 'SGA_v2.0_scaffold28G11973' => 'sas', 'SGA_v2.0_scaffold36G14317' => 'sas', 'SGA_v2.0_scaffold417G51250' => 'sas', 'SGA_v2.0_scaffold81G26138' => 'sas', 'SHI09187' => 'shi', 'SHI09188' => 'shi', 'SMO011G0047' => 'smo', 'SMO119G0041' => 'smo', 'SMO143G0139' => 'smo', 'SMO167G0049' => 'smo', 'SMO228G0092' => 'smo', 'SMO347G0291' => 'smo', 'Solyc01g080840.3' => 'sly', 'Solyc01g080850.4' => 'sly', 'Solyc11g005020.3' => 'sly', 'Solyc11g005030.3' => 'sly', 'Sopen01g030630' => 'spe', 'Sopen01g030640' => 'spe', 'Sopen11g001040' => 'spe', 'Sopen11g001050' => 'spe', 'Sp1g19170' => 'spa', 'Sp1g19180' => 'spa', 'Sp1g19510' => 'spa', 'Sp6g01650' => 'spa', 'Sp6g01660' => 'spa', 'TAR365G0940' => 'tar', 'TAR625G1206' => 'tar', 'TAR628G0124' => 'tar', 'TAR633G2711' => 'tar', 'THA.LOC104801325' => 'tha', 'THA.LOC104801326' => 'tha', 'THA.LOC104812087' => 'tha', 'THA.LOC104813679' => 'tha', 'Thecc.01G325100' => 'tca', 'Thecc.01G325300' => 'tca', 'Thecc.08G132300' => 'tca', 'Thecc.08G132400' => 'tca', 'Thhalv10006535m.g' => 'esa', 'Thhalv10028392m.g' => 'esa', 'Thhalv10028421m.g' => 'esa', 'TPR.G13463' => 'tpr', 'TPR.G13471' => 'tpr', 'TPR.G23231' => 'tpr', 'TPR.G2501' => 'tpr', 'TPR.G3065' => 'tpr', 'TPR.G36486' => 'tpr', 'TWI14G1058' => 'twi', 'TWI23G1021' => 'twi', 'TWI32G0149' => 'twi', 'TWI34G0871' => 'twi', 'TWI59G0772' => 'twi', 'unitig_0.g2255' => 'ugi', 'unitig_0.g2256' => 'ugi', 'unitig_0.g2283' => 'ugi', 'unitig_22.g6741' => 'ugi', 'unitig_90.g27448' => 'ugi', 'unitig_90.g27449' => 'ugi', 'vmacro02357' => 'vma', 'vmacro02358' => 'vma', 'vmacro02360' => 'vma', 'vmacro05516' => 'vma', 'vmacro05517' => 'vma', 'vmacro16445' => 'vma', 'VMungo0565G0003' => 'vmu', 'VMungo0720G1338' => 'vmu', 'VMungo0720G2451' => 'vmu', 'VMungo1309G1000' => 'vmu', 'VMungo1309G2387' => 'vmu', 'VMungo1309G2897' => 'vmu', 'VMungo1383G1946' => 'vmu', 'Zm00001eb090990' => 'zma', 'Zm00001eb120420' => 'zma', 'Zm00001eb130760' => 'zma', 'Zm00001eb337940' => 'zma', 'Zm00001eb340490' => 'zma' ) $gf_id = 'HOM05D001090' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001090' ) $data_identifier = 'HOM05D001090' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 8, 'aar' => (int) 3, 'aag' => (int) 4, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 22, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 6, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 4, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 7, 'cde' => (int) 7, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 4, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 4, 'cre' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 11, 'dca' => (int) 6, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 4, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 5, 'gma' => (int) 10, 'ghi' => (int) 11, 'gra' => (int) 5, 'vvi' => (int) 5, 'han' => (int) 5, 'cav' => (int) 3, 'hma' => (int) 6, 'vpl' => (int) 5, 'sun' => (int) 5, 'lal' => (int) 6, 'lonja' => (int) 9, 'lja' => (int) 4, 'lsa' => (int) 15, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 6, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 3, 'nta' => (int) 23, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 4, 'pax' => (int) 8, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 6, 'ptr' => (int) 5, 'ppa' => (int) 6, 'pco' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 4, 'sgi' => (int) 10, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 6, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 5, 'tar' => (int) 4, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 3, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 6, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb340490' $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